9y49

Structure of tuco-tuco ribosome with P/E tRNA and eEF2 (rotated)

Method: ELECTRON MICROSCOPY Dmax: 239.3 Å Quality: EXCELLENT

1. Protein Identity and Related Structures Protein Identity & Related Structures

Large ribosomal subunit protein eL19

OrganismNot specified

UniProt Q3T0W9

State in the Current Structure

Assembly Oligomeric State Construct Mutations and Modifications Ligands, Ions and Associated Components Method and Experimental Conditions Structure Quality
1 Protein–RNA Heteromer Protein × 77 RNA 6 PDB declaration: 83-meric(83) Consistent with all polymer counts Chain CR; UniProt 1–189 Not recorded tRNA (77-MER) × 1 Elongation factor 2 × 1 40S ribosomal protein S14 × 1 40S ribosomal protein S23 × 1 40S ribosomal protein S13 × 1 40S ribosomal protein S11 × 1 40S ribosomal protein S3a × 1 40S ribosomal protein SA × 1 40S ribosomal protein S21 × 1 40S ribosomal protein S24 × 1 40S ribosomal protein S26 × 1 40S ribosomal protein S27 × 1 40S ribosomal protein S30 × 1 40S ribosomal protein S9 × 1 40S ribosomal protein S4, X isoform × 1 40S ribosomal protein S2 × 1 40S ribosomal protein S6 × 1 40S ribosomal protein S7 × 1 40S ribosomal protein S15a × 1 40S ribosomal protein S8 × 1 18S rRNA (1786-MER) × 1 60S ribosomal protein L24 × 1 Guanine nucleotide-binding protein subunit beta-2-like 1 × 1 40S ribosomal protein S20 × 1 40S ribosomal protein S10 × 1 40S ribosomal protein S12 × 1 40S ribosomal protein S18 × 1 40S ribosomal protein S29 × 1 40S ribosomal protein S17 × 1 40S ribosomal protein S15 × 1 40S ribosomal protein S19 × 1 40S ribosomal protein S25 × 1 40S ribosomal protein S28 × 1 40S ribosomal protein S3 × 1 40S ribosomal protein S27a × 1 40S ribosomal protein S5 × 1 40S ribosomal protein S16 × 1 60S ribosomal protein L10a × 1 60S ribosomal protein L13a × 1 60S ribosomal protein L13 × 1 60S ribosomal protein L23 × 1 60S ribosomal protein L14 × 1 60S ribosomal protein L27a × 1 60S ribosomal protein L15 × 1 60S ribosomal protein L10-like × 1 60S ribosomal protein L5 × 1 60S ribosomal protein L18 × 1 60S ribosomal protein L8 × 1 60S ribosomal protein L18a × 1 60S ribosomal protein L21 × 1 60S ribosomal protein L17 × 1 60S ribosomal protein L22 × 1 60S ribosomal protein L23a × 1 60S ribosomal protein L26 × 1 60S ribosomal protein L27 × 1 60S ribosomal protein L28 × 1 60S ribosomal protein L35 × 1 60S ribosomal protein L29 × 1 60S ribosomal protein L3 × 1 60S ribosomal protein L7 × 1 60S ribosomal protein L30 × 1 60S ribosomal protein L31 × 1 60S ribosomal protein L32 × 1 60S ribosomal protein L35a × 1 60S ribosomal protein L34 × 1 60S ribosomal protein L36 × 1 60S ribosomal protein L37 × 1 60S ribosomal protein L38 × 1 60S ribosomal protein L39 × 1 60S ribosomal protein L4 × 1 60S ribosomal protein L40 × 1 60S ribosomal protein L41 × 1 60S ribosomal protein L37a × 1 60S ribosomal protein L36a × 1 60S ribosomal protein L11 × 1 60S ribosomal protein L9 × 1 60S ribosomal protein L6 × 1 60S ribosomal protein L7a × 1 LSU-alpha rRNA (1722-MER) × 1 5S rRNA (121-MER) × 1 5.8S rRNA (157-MER) × 1 LSU-beta rRNA (2069-MER) × 1 ELECTRON MICROSCOPY cryo-EM buffer:pH 7.4 cryo-EM vitrification conditions:Cryogen ETHANE Resolution 3.40 Å

Other States of the Same Protein in the Database

Each row is a biological assembly of the same UniProt protein in another PDB entry. The “Difference from current entry” column identifies evidence-level differences; no tag means the currently parsed fields agree.

17 other PDB entries and 17 assemblies. Open the comparison page and filter oligomeric states

View Construct and Data Evidence
UniProt name RL19_BOVIN
Isoform
PDB entities 83
Chains and sequence ranges Author chain CR; PDBConstruct 1–189; UniProt 1–189

The page prioritizes protein identity, the current assembly, associated components, oligomeric state and cross-PDB links. Chain mapping and sequence ranges are retained as data evidence. Internal IDs, import timestamps and assembly operation expressions are maintenance fields and are not shown here.

SAXS scattering curve SAXS Profile

SAXS profile for 9y49

P(r) Distance Distribution P(r) Distribution

P(r) distribution for 9y49
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2. Structure Basics 2. Structure Basics

Entry ID entry_id9y49
Deposition date deposition_date2025-09-02
Structure title titleStructure of tuco-tuco ribosome with P/E tRNA and eEF2 (rotated)
Keywords keywordsTuco tuco ribosome, RIBOSOME; RIBOSOME
Experimental Method methodELECTRON MICROSCOPY

3. SAXS Parameters (CRYSOL theoretical calculation) 3. SAXS Parameters (CRYSOL)

Radius of gyration Rg (Guinier) rg_guinier93.74
Radius of gyration Rg (electron density) rg_electron94.51
Forward intensity I(0) i0311284000000.00
Molecular weight molecular_weight3326600.0 kDa
Excluded volume excluded_volume3570400 ų
Envelope volume envelope_volume5939500 ų
Hydration-shell volume shell_volume470930 ų
Envelope diameter envelope_diameter317.2
Shell Rg shell_rg113.10
Envelope Rg envelope_rg94.14
Shape Rg shape_rg94.53
Total Rg total_rg94.54
Total atoms total_atoms392048
Residues n_residues18423
Spherical-harmonic order n_harmonics20
q range q_range— – 0.5000 −1
Data points n_points101
Shell type shell_typedirectional
Solvent electron density solvent_density0.3340 e/ų
Shell contrast contrast_shell0.0300 e/ų
CRYSOL version crysol_version4.1.3

4. P(r) Distance Distribution (GNOM inversion) 4. P(r) Analysis (GNOM)

Maximum dimension Dmax dmax239.3
Rg (real space) rg_real91.06
Rg uncertainty (real space) rg_real_error0.35
I(0) (real space) i0_real2.9850e+11
I(0) uncertainty (real space) i0_real_error5.1140e+09
Rg (reciprocal space) rg_reciprocal95.56
I(0) (reciprocal space) i0_reciprocal313100000000.0000
Solution quality estimate total_estimate0.9148
Solution quality rating solution_quality EXCELLENT a EXCELLENT solution
P(r) peaks n_peaks1
Primary peak position r_peak_primary112.6
Skewness Skewness skewness0.105
Kurtosis Kurtosis kurtosis-0.598
Angular range angular_range— – 0.0850 −1
Current regularization parameter α current_alpha0.6555
Highest regularization parameter α highest_alpha24310000000.0000
Real-space data points n_real_points18
GNOM version gnom_version4.1.3
Quality Criteria quality_criteria AN1: 0.000; Oscil: 0.997; Stabil: 0.977; Sysdev: 1.000; Positv: 1.000; Valcen: 0.976; Smooth: 0.000

5. Crystallography and Experiment 5. Crystallography & Experiment

6. Entities and Polymers Entities & Polymers (83)

8. Citations (1)

9. Files and Curves (10)